Research Output

2016

Isolation and cultivation of naive-like human pluripotent stem cells based on HERVH expression

Wang, J., Singh, M., Sun, C., Besser, D., Prigione, A., Ivics, Z., Hurst, L. D. & Izsvák, Z., 1 Feb 2016, In : Nature Protocols. 11, 2, p. 327-346 20 p.

Research output: Contribution to journalArticle

13 Citations (Scopus)

Limiting distribution of the rightmost particle in catalytic branching Brownian motion

Bocharov, S. & Harris, S. C., 4 Oct 2016, In : Electronic Communications in Probability. 21, 12 p., Paper no. 70.

Research output: Contribution to journalArticle

Open Access
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4 Citations (Scopus)
105 Downloads (Pure)

Localised pattern formation in a model for dryland vegetation

Dawes, J. H. P. & Williams, J. L. M., Jul 2016, In : Journal of Mathematical Biology. 73, 1, p. 63-90

Research output: Contribution to journalArticle

4 Citations (Scopus)

Measuring stratigraphic congruence across trees, higher taxa and time

O'Connor, A. & Wills, M., 30 Sep 2016, In : Systematic Biology. 65, 5, p. 792-811 20 p.

Research output: Contribution to journalArticle

Open Access
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5 Citations (Scopus)
112 Downloads (Pure)

Mesh adaptation on the sphere using optimal transport and the numerical solution of a Monge-Ampère type equation

Weller, H., Browne, P., Budd, C. & Cullen, M., 1 Mar 2016, In : Journal of Computational Physics. 308, p. 102-123 22 p.

Research output: Contribution to journalArticle

Open Access
10 Citations (Scopus)
52 Downloads (Pure)

Microevolutionary traits and comparative population genomics of the emerging pathogenic fungus Cryptococcus gattii

Farrer, R., Voelz, K., Henk, D., Johnston, S. A., Fisher, M., May, R. & Cuomo, C., 31 Dec 2016, In : Philosophical Transactions of the Royal Society B: Biological Sciences. 371, 1709, p. 1-11 11 p., 20160021.

Research output: Contribution to journalArticle

Open Access
13 Citations (Scopus)

Modularity and stability in ecological communities

Rogers, T., Allesina, S. & Grilli, J., 23 Jun 2016, In : Nature Communications. 7, 9 p., 12031 (2016).

Research output: Contribution to journalArticle

Open Access
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52 Citations (Scopus)
113 Downloads (Pure)

Multilayer asymptotic solution for wetting fronts in porous media with exponential moisture diffusivity

Budd, C. J. & Stockie, J. M., May 2016, In : Studies in Applied Mathematics. 136, 4, p. 424-458

Research output: Contribution to journalArticle

Open Access
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83 Downloads (Pure)

Mutation rate analysis via parent– progeny sequencing of the perennial peach. I. A low rate in woody perennials and a higher mutagenicity in hybrids

Xie, Z., Wang, L., Wang, L., Wang, Z., Lu, Z., Tian, D., Yang, S. & Hurst, L. D., 26 Oct 2016, In : Proceedings of the Royal Society B: Biological Sciences. 283, 1841, 20161016.

Research output: Contribution to journalArticle

Open Access
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18 Citations (Scopus)
103 Downloads (Pure)

Mutation rate analysis via parent- progeny sequencing of the perennial peach. II. No evidence for recombination associated mutation

Wang, L., Zhang, Y., Qin, C., Tian, D., Yang, S. & Hurst, L. D., 26 Oct 2016, In : Proceedings of the Royal Society B: Biological Sciences. 283, 1841, 20161785.

Research output: Contribution to journalArticle

Open Access
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3 Citations (Scopus)
112 Downloads (Pure)

Network innoculation: heteroclinics and phase transitions in an epidemic model

Yang, H., Rogers, T. & Gross, T., 22 Aug 2016, In : Chaos. 26, 083116.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Normative practical reasoning via argumentation and dialogue

Shams, Z., De Vos, M., Oren, N. & Padget, J., 31 Jul 2016, Proceedings of the 25th International Joint Conference on Artificial Intelligence (IJCAI), 2016. Kambhampati, S. (ed.). Palo Alto, U. S. A.: AAAI Press, p. 1244-1250 7 p. (Proceedings (IITA International Joint Conference on Artificial Intelligence)).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Open Access
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2 Citations (Scopus)
33 Downloads (Pure)

On the reliability of unreliable information: Gossip as cultural memory

Mitchell, D., Bryson, J. J., Rauwolf, P. & Ingram, G., Oct 2016, In : Interaction Studies. 17, 1, p. 1-25 25 p.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
93 Downloads (Pure)

Pluripotency and the endogenous retrovirus HERVH: conflict or serendipity?

Izsvák, Z., Wang, J., Singh, M., Mager, D. L. & Hurst, L. D., 1 Jan 2016, In : Bioessays. 38, 1, p. 109-117 9 p.

Research output: Contribution to journalArticle

26 Citations (Scopus)

Purifying selection on exonic splice enhancers in intronless genes

Savisaar, R. & Hurst, L. D., Jun 2016, In : Molecular Biology and Evolution. 33, 6, p. 1396-1418

Research output: Contribution to journalArticle

Open Access
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6 Citations (Scopus)
119 Downloads (Pure)

Reports of the aaai 2016 Spring Symposium Series

Amato, C., Amir, O., Bryson, J., Grosz, B., Indurkhya, B., Kiciman, E., Kido, T., Lawless, W. F., Liu, M., McDorman, B., Mead, R., Oliehoek, F. A., Specian, A., Stojanov, G. & Takadama, K., 1 Dec 2016, In : Z Magazine. 37, 4, p. 83-88 6 p.

Research output: Contribution to journalArticle

Revising institutions governed by institutions for compliant regulations

King, T. C., Li, T., De Vos, M., Jonker, C. M., Padget, J. & van Riemsdijk, M. B., 13 Jul 2016, Coordination, Organizations, Institutions, and Normes in Agent Systems XI: COIN 2015 International Workshops, COIN@AAMAS, Istanbul, Turkey, May 4, 2015, COIN@IJCAI, Buenos Aires, Argentina, July 26, 2015, Revised Selected Papers. Dignum, V., Noriega, P., Sensoy, M. & Simao Sichman, J. (eds.). Springer International Publishing, p. 191-208 18 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 9628).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2 Citations (Scopus)

Robot Transparency, Trust and Utility

Wortham, R. H., Theodorou, A. & Bryson, J. J., 4 Apr 2016. 3 p.

Research output: Contribution to conferencePaper

Open Access
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244 Downloads (Pure)

Robust set-point regulation for ecological models with multiple management goals

Guiver, C., Mueller, M., Hodgson, D. & Townley, S., 1 May 2016, In : Journal of Mathematical Biology. 72, 6, p. 1467-1529 63 p.

Research output: Contribution to journalArticle

Open Access
File
2 Citations (Scopus)
94 Downloads (Pure)

Sampling diverse characters improves phylogenies: craniodental and postcranial characters of vertebrates often imply different trees

Mounce, R. C. P., Sansom, R. & Wills, M. A., 15 Mar 2016, In : Evolution. 70, 3, p. 666-686 21 p.

Research output: Contribution to journalArticle

Open Access
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11 Citations (Scopus)
128 Downloads (Pure)

Scale-invariant geometric random graphs

Xie, Z. & Rogers, T., 9 Mar 2016, In : Physical Review E. 93, 3, 032310.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Self-focusing dynamics of patches of ripples

Milewski, P. A. & Wang, Z., 15 Oct 2016, In : Physica D: Nonlinear Phenomena. 333, p. 235-242

Research output: Contribution to journalArticle

Open Access
3 Citations (Scopus)

Simple adaptive control for positive linear systems with applications to pest management

Guiver, C., Edholm, C., Jin, Y., Mueller, M., Powell, J., Rebarber, R., Tenhumberg, B. & Townley, S., 4 Feb 2016, In : SIAM Journal on Applied Mathematics. 76, 1, p. 238-275 38 p.

Research output: Contribution to journalArticle

Open Access
6 Citations (Scopus)
54 Downloads (Pure)

Simple adaptive feedback control for positive state control systems

Guiver, C., Logemann, H. & Townley, S., 2016, (Unpublished).

Research output: Contribution to conferencePaper

File
30 Downloads (Pure)

Simulation and the evolution of thought

Bryson, J. J., 1 Jan 2016, Memory in the Twenty-First Century: New Critical Perspectives from the Arts, Humanities, and Sciences. Groes, S. (ed.). Palgrave Macmillan, p. 205-207 3 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Skorokhod embeddings for two-sided Markov chains

Morters, P. & Redl, I., Jun 2016, In : Probability Theory and Related Fields. 165, 1

Research output: Contribution to journalArticle

Open Access
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1 Citation (Scopus)
103 Downloads (Pure)

Stability of higher-order discrete-time Lur’e systems

Sarkans, E. & Logemann, H., 1 Oct 2016, In : Linear Algebra and its Applications. 506, p. 183-211 30 p.

Research output: Contribution to journalArticle

Open Access
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4 Citations (Scopus)
105 Downloads (Pure)

Stability of Non-Negative Lur'e Systems

Bill, A., Guiver, C., Logemann, H. & Townley, S., 12 May 2016, In : SIAM Journal on Control and Optimization. 54, 3, p. 1176-1211 36 p.

Research output: Contribution to journalArticle

Open Access
6 Citations (Scopus)
49 Downloads (Pure)

Structure-activity relationships of 2-arylquinazolin-4-ones as highly selective and potent inhibitors of the tankyrases

Nathubhai, A., Haikarainen, T., Hayward, P. C., Munoz-Descalzo, S., Thompson, A. S., Lloyd, M. D., Lehtio, L. & Threadgill, M., 8 Aug 2016, In : European Journal of Medicinal Chemistry. 118, p. 316-327 12 p.

Research output: Contribution to journalArticle

Open Access
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16 Citations (Scopus)
119 Downloads (Pure)

Substitution of the native srfA promoter by constitutive Pveg in two B. subtilis strains and evaluation of the effect on surfactin production

Willenbacher, J., Mohr, T., Henkel, M., Gebhard, S., Mascher, T., Syldatk, C. & Hausmann, R., Apr 2016, In : Journal of Biotechnology. 224, p. 14-17

Research output: Contribution to journalArticle

Open Access
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15 Citations (Scopus)
131 Downloads (Pure)

The confabulation of self

Bryson, J. J., 1 Jan 2016, Memory in the Twenty-First Century: New Critical Perspectives from the Arts, Humanities, and Sciences. Groes, S. (ed.). Palgrave Macmillan, p. 334-337 4 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

The evolution of sex-specific dominance in response to sexually antagonistic selection

Spencer, H. G. & Priest, N. K., May 2016, In : The American Naturalist. 187, 5, p. 658-666 9 p., 10.1086/685827.

Research output: Contribution to journalArticle

File
12 Citations (Scopus)
142 Downloads (Pure)

The impact of host metapopulation structure on the population genetics of colonizing bacteria

Numminen, E., Gutmann, M., Shubin, M., Marttinen, P., Méric, G., van Schaik, W., Coque, T. M., Baquero, F., Willems, R. J. L., Sheppard, S. K., Feil, E. J., Hanage, W. P. & Corander, J., 7 May 2016, In : Journal of Theoretical Biology. 396, p. 53-62 10 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

The landscape of realized homologous recombination in pathogenic bBacteria

Yahara, K., Didelot, X., Jolley, K. A., Kobayashi, I., Maiden, M. C. J., Sheppard, S. & Falush, D., 1 Feb 2016, In : Molecular Biology and Evolution. 33, 2, p. 456-471 16 p.

Research output: Contribution to journalArticle

Open Access
20 Citations (Scopus)

The optimal timing of open market stock repurchases

Krause, A. & Hsu, C-C., 2016, In : Emerging Markets Finance and Trade. 52, 4, p. 776-785

Research output: Contribution to journalArticle

4 Citations (Scopus)

The stealthy superbug: the role of asymptomatic enteric carriage in maintaining a long-term hospital outbreak of ST228 methicillin-resistant Staphylococcus aureus

Senn, L., Clerc, O., Zanetti, G., Basset, P., Prod'hom, G., Gordon, N., Sheppard, A., Crook, D., James, R., Thorpe, H. A. F. W., Feil, E. & Blanc, D., 28 Feb 2016, In : mBio. 7, 1, p. 1-9 9 p., e02039-15.

Research output: Contribution to journalArticle

Open Access
36 Citations (Scopus)
44 Downloads (Pure)

Thyroid hormones regulate zebrafish melanogenesis in a gender-specific manner

Guillot, R., Muriach, B., Rocha, A., Rotllant, J., Kelsh, R. & Cerda-Reverter, J. M., 10 Nov 2016, In : PLoS ONE. 11, 11, e0166152.

Research output: Contribution to journalArticle

Open Access
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12 Citations (Scopus)
107 Downloads (Pure)

Transmission of Staphylococcus aureus from humans to green monkeys in the Gambia as revealed by whole-genome sequencing

Senghore, M., Bayliss, S., Kwambana-Adams, B., Foster-Nyarko, E., Menneh, J., Dione, M., Badji, H., Ebruke, C., Doughty, E., Thorpe, H. A. F. W., Jasinska, A., Schmitt, C., Cramer, J., Turner, T., Weinstock, G., Freimer, N., Pallen, M., Feil, E. & Antonio, M., Oct 2016, In : Applied and Environmental Microbiology. 82, 19, p. 5910-5917 8 p.

Research output: Contribution to journalArticle

Open Access
10 Citations (Scopus)

Triple jeopardy for people with albinism

Arnheiter, H., Long, G., Aplin, A., Harris, J. & Kelsh, R., Sep 2016, In : Pigment Cell & Melanoma Research. 29, 5, p. 487

Research output: Contribution to journalArticle

Trust, Communication, and Inequality

Bryson, J. J. & Rauwolf, P., Aug 2016, Proceedings of the 38th Annual Meeting of the Cognitive Science Society. Philadelphia

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Open Access
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50 Downloads (Pure)

Unexpected diversity in socially synchronized rhythms of shorebirds

Bulla, M., Valcu, M., Dokter, A. M., Dondua, A. G., Kosztolányi, A., Rutten, A. L., Helm, B., Sandercock, B. K., Casler, B., Ens, B. J., Spiegel, C. S., Hassell, C. J., Küpper, C., Minton, C., Burgas, D., Lank, D. B., Payer, D. C., Loktionov, E. Y., Nol, E., Kwon, E. & 56 others, Smith, F., Gates, H. R., Vitnerová, H., Prüter, H., Johnson, J. A., St Clair, J. J. H., Lamarre, J. F., Rausch, J., Reneerkens, J., Conklin, J. R., Burger, J., Liebezeit, J., Bêty, J., Coleman, J. T., Figuerola, J., Hooijmeijer, J. C. E. W., Alves, J. A., Smith, J. A. M., Weidinger, K., Koivula, K., Gosbell, K., Exo, K. M., Niles, L., Koloski, L., McKinnon, L., Praus, L., Klaassen, M., Giroux, M. A., Sládecek, M., Boldenow, M. L., Goldstein, M. I., Šálek, M., Senner, N., Rönkä, N., Lecomte, N., Gilg, O., Vincze, O., Johnson, O. W., Smith, P. A., Woodard, P. F., Tomkovich, P. S., Battley, P. F., Bentzen, R., Lanctot, R. B., Porter, R., Saalfeld, S. T., Freeman, S., Brown, S. C., Yezerinac, S., Székely, T., Montalvo, T., Piersma, T., Loverti, V., Pakanen, V. M., Tijsen, W. & Kempenaers, B., 1 Dec 2016, In : Nature. 540, 7631, p. 109-113 5 p.

Research output: Contribution to journalLetter

Open Access
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50 Citations (Scopus)
47 Downloads (Pure)

Welcome to the New Year!

Arnheiter, H., Long, G., Aplin, A., Harris, J. & Kelsh, R., Jan 2016, In : Pigment Cell & Melanoma Research. 29, 1, p. 3

Research output: Contribution to journalEditorial

What do aliens look like? The clue is in evolution

Wills, M., 19 Aug 2016, The Conversation.

Research output: Contribution to specialist publicationArticle

Open Access

What Does the Robot Think? Transparency as a Fundamental Design Requirement for Intelligent Systems

Wortham, R. H., Theodorou, A. & Bryson, J. J., 9 Jun 2016, Proceedings of the IJCAI Workshop on Ethics for Artificial Intelligence : International Joint Conference on Artificial Intelligence. 6 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Open Access
File
82 Downloads (Pure)

What is a vertebrate pigment cell?

Schartl, M., Larue, L., Goda, M., Bosenberg, M. W., Hashimoto, H. & Kelsh, R. N., Jan 2016, In : Pigment Cell & Melanoma Research. 29, 1, p. 8-14

Research output: Contribution to journalLiterature review

Open Access
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32 Citations (Scopus)
134 Downloads (Pure)

Whole-genome sequencing for routine pathogen surveillance in Public Health: a population snapshot of invasive staphylococcus aureus in Europe

ESCMID Study Group on Molecular Epidemiological Markers (ESGEM) & European Staphylococcal Reference Laboratory Working Group, 30 Jun 2016, In : mBio. 7, 3, 15 p., e00444-16.

Research output: Contribution to journalArticle

Open Access
File
85 Citations (Scopus)
73 Downloads (Pure)

Why did sex evolve? Researchers edge closer to solving longstanding mystery

Hurst, L., 29 Feb 2016, The Conversation.

Research output: Contribution to specialist publicationArticle

Open Access

Why is my robot behaving like that? Designing transparency for real time inspection of autonomous robots

Theodorou, A., Wortham, R. H. & Bryson, J. J., 4 Apr 2016. 4 p.

Research output: Contribution to conferencePaper

Open Access
File
71 Downloads (Pure)

Why is the X chromosome so odd? Traffic analogy helped us crack the mystery

Hurst, L. D. & Huminiecki, L., 11 Jan 2016, The Conversation.

Research output: Contribution to specialist publicationArticle

Open Access